Assembly and structure of Lys33-linked polyubiquitin reveals distinct conformations

The Biochemical Journal
Yosua Adi KristariyantoYogesh Kulathu

Abstract

Ubiquitylation regulates a multitude of biological processes and this versatility stems from the ability of ubiquitin (Ub) to form topologically different polymers of eight different linkage types. Whereas some linkages have been studied in detail, other linkage types including Lys33-linked polyUb are poorly understood. In the present study, we identify an enzymatic system for the large-scale assembly of Lys33 chains by combining the HECT (homologous to the E6-AP C-terminus) E3 ligase AREL1 (apoptosis-resistant E3 Ub protein ligase 1) with linkage selective deubiquitinases (DUBs). Moreover, this first characterization of the chain selectivity of AREL1 indicates its preference for assembling Lys33- and Lys11-linked Ub chains. Intriguingly, the crystal structure of Lys33-linked diUb reveals that it adopts a compact conformation very similar to that observed for Lys11-linked diUb. In contrast, crystallographic analysis of Lys33-linked triUb reveals a more extended conformation. These two distinct conformational states of Lys33-linked polyUb may be selectively recognized by Ub-binding domains (UBD) and enzymes of the Ub system. Importantly, our work provides a method to assemble Lys33-linked polyUb that will allow further character...Continue Reading

References

Apr 5, 1987·Journal of Molecular Biology·S Vijay-KumarW J Cook
Mar 30, 2001·The Journal of Biological Chemistry·J You, C M Pickart
Dec 4, 2002·Journal of Molecular Biology·Ranjani VaradanDavid Fushman
Dec 2, 2004·Biochimica Et Biophysica Acta·Cecile M Pickart, Michael J Eddins
Sep 9, 2005·The EMBO Journal·Kaisa Haglund, Ivan Dikic
Jan 24, 2007·Biochemical and Biophysical Research Communications·Younghoon Kee, Jon M Huibregtse
Feb 8, 2008·The Biochemical Journal·Abdallah K Al-HakimDario R Alessi
Jun 6, 2009·Annual Review of Biochemistry·Francisca E Reyes-TurcuKeith D Wilkinson
Jun 6, 2009·Annual Review of Biochemistry·Raymond J Deshaies, Claudio A P Joazeiro
Oct 27, 2009·Journal of Molecular Biology·David Fushman, Olivier Walker
Nov 26, 2009·Nature Structural & Molecular Biology·Yogesh KulathuDavid Komander
Aug 31, 2010·Nature Chemical Biology·Satpal VirdeeJason W Chin
Sep 9, 2011·The Journal of Biological Chemistry·Takashi HiranoKoichi Kato
Dec 14, 2011·Journal of Proteome Research·Gozde KarAttila Gursoy
Dec 14, 2011·Nature Structural & Molecular Biology·Julien D F LicchesiDavid Komander
Jan 28, 2012·Acta Crystallographica. Section D, Biological Crystallography·Ahmed RohaimSoichi Wakatsuki
Apr 10, 2012·Annual Review of Biochemistry·Koraljka Husnjak, Ivan Dikic
Apr 13, 2012·Molecular & Cellular Proteomics : MCP·Yi ShengSirano Dhe-Paganon
May 1, 2012·Biochimica Et Biophysica Acta·Ming-Yih LaiDavid Fushman
Jul 14, 2012·EMBO Reports·Benjamin StieglitzKatrin Rittinger
Jul 24, 2012·Nature Reviews. Molecular Cell Biology·Yogesh Kulathu, David Komander
Aug 7, 2012·Molecular & Cellular Proteomics : MCP·Amelia C PetersonJoshua J Coon
Apr 9, 2013·Nature Structural & Molecular Biology·Manuela K HospenthalDavid Komander
Aug 30, 2013·Proceedings of the National Academy of Sciences of the United States of America·Christoph H EmmerichPhilip Cohen
Mar 1, 2014·The Biochemical Journal·Donald E SprattGary S Shaw
May 13, 2014·Cell·Hermann-Josef Meyer, Michael Rape
Aug 28, 2014·Nature Communications·Maria Stella RitortoMatthias Trost

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Citations

Mar 5, 2016·Biochemistry·Kirby Martinez-Fonts, Andreas Matouschek
Mar 26, 2016·Cell Research·Kirby N Swatek, David Komander
Mar 26, 2016·Cell Research·Judith A RonauMark Hochstrasser
Jun 9, 2016·Journal of the American Chemical Society·Man PanLei Liu
Jun 21, 2015·Current Opinion in Chemical Biology·Grace H Pham, Eric R Strieter
May 13, 2017·Annual Review of Biochemistry·Tycho E T Mevissen, David Komander
Oct 1, 2015·Physical Chemistry Chemical Physics : PCCP·Carlos A CastañedaDavid Fushman
Sep 26, 2017·Nature Structural & Molecular Biology·Yusuke SatoShuya Fukai
Dec 14, 2017·Nature Communications·Zhengkui ZhangLong Zhang
Feb 26, 2016·Journal of Cell Science·Masato AkutsuAnja Bremm
Feb 10, 2019·The Journal of Biological Chemistry·Lena K RiesSonja Lorenz
Nov 1, 2016·Biomedit︠s︡inskai︠a︡ khimii︠a︡·O A Buneeva, A E Medvedev
Jan 14, 2017·EMBO Reports·Yosua Adi KristariyantoYogesh Kulathu
Sep 25, 2017·Biochemical Society Transactions·Rachel E HeapMatthias Trost
Feb 11, 2020·The Biochemical Journal·Sunil Singh, J Sivaraman
May 27, 2016·Biomolecular Concepts·Daichi Morimoto, Masahiro Shirakawa
Feb 11, 2016·Biochemical Society Transactions·Viduth K Chaugule, Helen Walden
May 22, 2016·The Biochemical Journal·Mathew Stanley, Satpal Virdee
Nov 17, 2019·The Journal of Biological Chemistry·Sunil SinghJ Sivaraman
Feb 11, 2020·Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry·A ShineVinesh Vijayan
Apr 25, 2020·International Journal of Molecular Sciences·Weigang LiuHuaijun Si
Feb 11, 2020·Frontiers in Chemistry·Dharjath Shahul HameedHuib Ovaa
Apr 20, 2019·Frontiers in Physiology·Janine WeberElena Maspero
Oct 4, 2019·JCI Insight·Travis B LearBill B Chen
May 4, 2017·The Journal of Biological Chemistry·Michael E FrenchTony Hunter
Jan 1, 2021·The Journal of Biological Chemistry·Lee D HarrisJulien D F Licchesi
Nov 17, 2020·Frontiers in Cell and Developmental Biology·Jessica R BlountSokol V Todi
Jan 12, 2021·The Journal of Biological Chemistry·Lee D HarrisJulien D F Licchesi
Feb 20, 2021·Pharmacology & Therapeutics·Sunil SinghJ Sivaraman
Oct 17, 2015·Analytical Biochemistry·Serena FaggianoAnnalisa Pastore
Apr 16, 2021·The Journal of Biological Chemistry·Lee D HarrisJulien D F Licchesi
May 21, 2021·Journal of Biomolecular Structure & Dynamics·Sudipa MondalSudit S Mukhopadhyay
Aug 10, 2019·Organic Letters·Jiaan LiuEric R Strieter
Sep 17, 2021·Molecular Cell·Syed Arif Abdul RehmanYogesh Kulathu

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Methods Mentioned

BETA
NMR

Software Mentioned

Xcalibur
Itch

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